, doi: 10.7490/f1000research.1112903.1
Did my IP work? Where is my signal? How well do my replicates correlate? What might my peaks even look like? Where are my peaks (or signal) in relationship to transcription start sites (or other features)? These are common questions that biologists first pose when dealing with ChIPseq data. We will use deepTools and MACS within Galaxy to demonstrate effective methods of (A) performingChIPseq-specific quality control, (B) calling peaks and (C) visualizing signal and peak enrichment around genes or other features.Prerequisites:
- A basic familiarity with using Galaxy (how to import datasets and run tools).
- Ideally participants will already be familiar with generic NGS quality control and read mapping, since those won't be covered